Variant report

Variant	rs71507687
Chromosome Location	chr9:103258155-103258156
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:103257613..103260503-chr9:103266452..103268152,2	MCF-7	breast:

Extended variants
information (count: 45 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs11788011	0.90[EUR][1000 genomes]
rs11788918	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11789665	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11790432	1.00[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11792489	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11792747	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11792926	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11793359	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11793457	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11794817	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs13283467	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs13284662	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs13286180	1.00[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs13289939	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs13292364	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs13302460	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs28759503	0.80[AMR][1000 genomes]
rs34138998	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs34169031	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34234519	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34390257	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34555593	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs34759817	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34779059	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34798346	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs34999135	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs35039632	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs35255178	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35315430	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35388593	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs35394420	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs35495064	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35656901	1.00[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs36011161	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs36055955	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs36105493	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs55693063	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7019804	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs71507684	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs71507685	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs71507686	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7869547	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9696536	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv893623	chr9:102648036-103405197	Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
2	nsv614955	chr9:103181596-103261227	ZNF genes & repeats Enhancers Bivalent/Poised TSS Weak transcription Flanking Active TSS Strong transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:31 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:103238200-103264200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr9:103238200-103274600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr9:103251600-103258600	Enhancers	Brain Substantia Nigra	brain
4	chr9:103252000-103258600	Enhancers	Brain Anterior Caudate	brain
5	chr9:103255200-103261000	Enhancers	Brain Inferior Temporal Lobe	brain
6	chr9:103255200-103271000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
7	chr9:103255400-103277600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
8	chr9:103255600-103265800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
9	chr9:103255600-103266000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
10	chr9:103255600-103272400	Weak transcription	H9 Cell Line	embryonic stem cell
11	chr9:103255600-103272400	Weak transcription	Fetal Brain Female	brain
12	chr9:103255600-103301600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
13	chr9:103255800-103259800	Weak transcription	HUES6 Cell Line	embryonic stem cell
14	chr9:103255800-103259800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
15	chr9:103255800-103266000	Weak transcription	Cortex derived primary cultured neurospheres	brain
16	chr9:103255800-103272400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
17	chr9:103256000-103259800	Weak transcription	HUES64 Cell Line	embryonic stem cell
18	chr9:103256200-103265000	Weak transcription	H1 Cell Line	embryonic stem cell
19	chr9:103256200-103287400	Weak transcription	HSMMtube	muscle
20	chr9:103256400-103271600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
21	chr9:103257000-103258600	Enhancers	Brain Hippocampus Middle	brain
22	chr9:103257000-103259400	Weak transcription	HUES48 Cell Line	embryonic stem cell
23	chr9:103257000-103259800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
24	chr9:103257000-103272400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr9:103257000-103289400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
26	chr9:103257200-103260800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
27	chr9:103257200-103261000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
28	chr9:103257600-103258200	Enhancers	Brain Germinal Matrix	brain
29	chr9:103257800-103258400	Enhancers	iPS-18 Cell Line	embryonic stem cell
30	chr9:103258000-103258400	Enhancers	Brain Cingulate Gyrus	brain
31	chr9:103258000-103261000	Enhancers	Brain Angular Gyrus	brain

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